From 8d4ba388472fb0cfd3a8dd37312fed8d9bbe2bbf Mon Sep 17 00:00:00 2001
From: Nico Matentzoglu <nicolas.matentzoglu@gmail.com>
Date: Thu, 29 Aug 2024 21:31:15 +0300
Subject: [PATCH 1/2] Add crowdin prepare method to babelon

---
 poetry.lock          | 2199 +++++++++++++++++++++++-------------------
 src/babelon/cli.py   |   42 +-
 src/babelon/utils.py |   57 ++
 3 files changed, 1285 insertions(+), 1013 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index ff874ec..2e26c10 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -1,4 +1,4 @@
-# This file is automatically @generated by Poetry 1.7.1 and should not be changed by hand.
+# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand.
 
 [[package]]
 name = "airium"
@@ -17,24 +17,24 @@ parse = ["beautifulsoup4 (>=4.10.0,<5.0)", "requests (>=2.12.0,<3)"]
 
 [[package]]
 name = "alabaster"
-version = "0.7.16"
+version = "1.0.0"
 description = "A light, configurable Sphinx theme"
 optional = false
-python-versions = ">=3.9"
+python-versions = ">=3.10"
 files = [
-    {file = "alabaster-0.7.16-py3-none-any.whl", hash = "sha256:b46733c07dce03ae4e150330b975c75737fa60f0a7c591b6c8bf4928a28e2c92"},
-    {file = "alabaster-0.7.16.tar.gz", hash = "sha256:75a8b99c28a5dad50dd7f8ccdd447a121ddb3892da9e53d1ca5cca3106d58d65"},
+    {file = "alabaster-1.0.0-py3-none-any.whl", hash = "sha256:fc6786402dc3fcb2de3cabd5fe455a2db534b371124f1f21de8731783dec828b"},
+    {file = "alabaster-1.0.0.tar.gz", hash = "sha256:c00dca57bca26fa62a6d7d0a9fcce65f3e026e9bfe33e9c538fd3fbb2144fd9e"},
 ]
 
 [[package]]
 name = "annotated-types"
-version = "0.6.0"
+version = "0.7.0"
 description = "Reusable constraint types to use with typing.Annotated"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "annotated_types-0.6.0-py3-none-any.whl", hash = "sha256:0641064de18ba7a25dee8f96403ebc39113d0cb953a01429249d5c7564666a43"},
-    {file = "annotated_types-0.6.0.tar.gz", hash = "sha256:563339e807e53ffd9c267e99fc6d9ea23eb8443c08f112651963e24e22f84a5d"},
+    {file = "annotated_types-0.7.0-py3-none-any.whl", hash = "sha256:1f02e8b43a8fbbc3f3e0d4f0f4bfc8131bcb4eebe8849b8e5c773f3a1c582a53"},
+    {file = "annotated_types-0.7.0.tar.gz", hash = "sha256:aff07c09a53a08bc8cfccb9c85b05f1aa9a2a6f23728d790723543408344ce89"},
 ]
 
 [[package]]
@@ -49,20 +49,18 @@ files = [
 
 [[package]]
 name = "anyio"
-version = "4.3.0"
+version = "4.4.0"
 description = "High level compatibility layer for multiple asynchronous event loop implementations"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "anyio-4.3.0-py3-none-any.whl", hash = "sha256:048e05d0f6caeed70d731f3db756d35dcc1f35747c8c403364a8332c630441b8"},
-    {file = "anyio-4.3.0.tar.gz", hash = "sha256:f75253795a87df48568485fd18cdd2a3fa5c4f7c5be8e5e36637733fce06fed6"},
+    {file = "anyio-4.4.0-py3-none-any.whl", hash = "sha256:c1b2d8f46a8a812513012e1107cb0e68c17159a7a594208005a57dc776e1bdc7"},
+    {file = "anyio-4.4.0.tar.gz", hash = "sha256:5aadc6a1bbb7cdb0bede386cac5e2940f5e2ff3aa20277e991cf028e0585ce94"},
 ]
 
 [package.dependencies]
-exceptiongroup = {version = ">=1.0.2", markers = "python_version < \"3.11\""}
 idna = ">=2.8"
 sniffio = ">=1.1"
-typing-extensions = {version = ">=4.1", markers = "python_version < \"3.11\""}
 
 [package.extras]
 doc = ["Sphinx (>=7)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"]
@@ -101,32 +99,32 @@ test = ["dateparser (==1.*)", "pre-commit", "pytest", "pytest-cov", "pytest-mock
 
 [[package]]
 name = "attrs"
-version = "23.2.0"
+version = "24.2.0"
 description = "Classes Without Boilerplate"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "attrs-23.2.0-py3-none-any.whl", hash = "sha256:99b87a485a5820b23b879f04c2305b44b951b502fd64be915879d77a7e8fc6f1"},
-    {file = "attrs-23.2.0.tar.gz", hash = "sha256:935dc3b529c262f6cf76e50877d35a4bd3c1de194fd41f47a2b7ae8f19971f30"},
+    {file = "attrs-24.2.0-py3-none-any.whl", hash = "sha256:81921eb96de3191c8258c199618104dd27ac608d9366f5e35d011eae1867ede2"},
+    {file = "attrs-24.2.0.tar.gz", hash = "sha256:5cfb1b9148b5b086569baec03f20d7b6bf3bcacc9a42bebf87ffaaca362f6346"},
 ]
 
 [package.extras]
-cov = ["attrs[tests]", "coverage[toml] (>=5.3)"]
-dev = ["attrs[tests]", "pre-commit"]
-docs = ["furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-towncrier", "towncrier", "zope-interface"]
-tests = ["attrs[tests-no-zope]", "zope-interface"]
-tests-mypy = ["mypy (>=1.6)", "pytest-mypy-plugins"]
-tests-no-zope = ["attrs[tests-mypy]", "cloudpickle", "hypothesis", "pympler", "pytest (>=4.3.0)", "pytest-xdist[psutil]"]
+benchmark = ["cloudpickle", "hypothesis", "mypy (>=1.11.1)", "pympler", "pytest (>=4.3.0)", "pytest-codspeed", "pytest-mypy-plugins", "pytest-xdist[psutil]"]
+cov = ["cloudpickle", "coverage[toml] (>=5.3)", "hypothesis", "mypy (>=1.11.1)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"]
+dev = ["cloudpickle", "hypothesis", "mypy (>=1.11.1)", "pre-commit", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"]
+docs = ["cogapp", "furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-towncrier", "towncrier (<24.7)"]
+tests = ["cloudpickle", "hypothesis", "mypy (>=1.11.1)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"]
+tests-mypy = ["mypy (>=1.11.1)", "pytest-mypy-plugins"]
 
 [[package]]
 name = "babel"
-version = "2.14.0"
+version = "2.16.0"
 description = "Internationalization utilities"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
-    {file = "Babel-2.14.0-py3-none-any.whl", hash = "sha256:efb1a25b7118e67ce3a259bed20545c29cb68be8ad2c784c83689981b7a57287"},
-    {file = "Babel-2.14.0.tar.gz", hash = "sha256:6919867db036398ba21eb5c7a0f6b28ab8cbc3ae7a73a44ebe34ae74a4e7d363"},
+    {file = "babel-2.16.0-py3-none-any.whl", hash = "sha256:368b5b98b37c06b7daf6696391c3240c938b37767d4584413e8438c5c435fa8b"},
+    {file = "babel-2.16.0.tar.gz", hash = "sha256:d1f3554ca26605fe173f3de0c65f750f5a42f924499bf134de6423582298e316"},
 ]
 
 [package.extras]
@@ -134,13 +132,13 @@ dev = ["freezegun (>=1.0,<2.0)", "pytest (>=6.0)", "pytest-cov"]
 
 [[package]]
 name = "bcp47"
-version = "0.0.4"
+version = "0.1.0"
 description = "Language tags made easy"
 optional = false
 python-versions = "*"
 files = [
-    {file = "bcp47-0.0.4-py3-none-any.whl", hash = "sha256:309d3bbaef8d6c9ac59d37ba2167cc6620b4e7467ec8f1e09641b659bb1c0c6d"},
-    {file = "bcp47-0.0.4.tar.gz", hash = "sha256:4878d2f3e697ef39ef3891a147280705e4377d5a8d7eb0702129b8d4a3718702"},
+    {file = "bcp47-0.1.0-py3-none-any.whl", hash = "sha256:a567b7fe881c900916a9db62ac8f792370c7ddf2664e601b74eeed35d8758aa5"},
+    {file = "bcp47-0.1.0.tar.gz", hash = "sha256:37cc7a03fd696149ebfe7de785c5bad473f911eddac8415cf479584049cf03d5"},
 ]
 
 [[package]]
@@ -164,37 +162,80 @@ charset-normalizer = ["charset-normalizer"]
 html5lib = ["html5lib"]
 lxml = ["lxml"]
 
+[[package]]
+name = "black"
+version = "24.8.0"
+description = "The uncompromising code formatter."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "black-24.8.0-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:09cdeb74d494ec023ded657f7092ba518e8cf78fa8386155e4a03fdcc44679e6"},
+    {file = "black-24.8.0-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:81c6742da39f33b08e791da38410f32e27d632260e599df7245cccee2064afeb"},
+    {file = "black-24.8.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:707a1ca89221bc8a1a64fb5e15ef39cd755633daa672a9db7498d1c19de66a42"},
+    {file = "black-24.8.0-cp310-cp310-win_amd64.whl", hash = "sha256:d6417535d99c37cee4091a2f24eb2b6d5ec42b144d50f1f2e436d9fe1916fe1a"},
+    {file = "black-24.8.0-cp311-cp311-macosx_10_9_x86_64.whl", hash = "sha256:fb6e2c0b86bbd43dee042e48059c9ad7830abd5c94b0bc518c0eeec57c3eddc1"},
+    {file = "black-24.8.0-cp311-cp311-macosx_11_0_arm64.whl", hash = "sha256:837fd281f1908d0076844bc2b801ad2d369c78c45cf800cad7b61686051041af"},
+    {file = "black-24.8.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:62e8730977f0b77998029da7971fa896ceefa2c4c4933fcd593fa599ecbf97a4"},
+    {file = "black-24.8.0-cp311-cp311-win_amd64.whl", hash = "sha256:72901b4913cbac8972ad911dc4098d5753704d1f3c56e44ae8dce99eecb0e3af"},
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+    {file = "black-24.8.0-cp312-cp312-macosx_11_0_arm64.whl", hash = "sha256:649f6d84ccbae73ab767e206772cc2d7a393a001070a4c814a546afd0d423aed"},
+    {file = "black-24.8.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:2b59b250fdba5f9a9cd9d0ece6e6d993d91ce877d121d161e4698af3eb9c1018"},
+    {file = "black-24.8.0-cp312-cp312-win_amd64.whl", hash = "sha256:6e55d30d44bed36593c3163b9bc63bf58b3b30e4611e4d88a0c3c239930ed5b2"},
+    {file = "black-24.8.0-cp38-cp38-macosx_10_9_x86_64.whl", hash = "sha256:505289f17ceda596658ae81b61ebbe2d9b25aa78067035184ed0a9d855d18afd"},
+    {file = "black-24.8.0-cp38-cp38-macosx_11_0_arm64.whl", hash = "sha256:b19c9ad992c7883ad84c9b22aaa73562a16b819c1d8db7a1a1a49fb7ec13c7d2"},
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+    {file = "black-24.8.0-cp39-cp39-macosx_10_9_x86_64.whl", hash = "sha256:eab4dd44ce80dea27dc69db40dab62d4ca96112f87996bca68cd75639aeb2e4c"},
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+    {file = "black-24.8.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.manylinux_2_28_x86_64.whl", hash = "sha256:9e84e33b37be070ba135176c123ae52a51f82306def9f7d063ee302ecab2cf47"},
+    {file = "black-24.8.0-cp39-cp39-win_amd64.whl", hash = "sha256:73bbf84ed136e45d451a260c6b73ed674652f90a2b3211d6a35e78054563a9bb"},
+    {file = "black-24.8.0-py3-none-any.whl", hash = "sha256:972085c618ee94f402da1af548a4f218c754ea7e5dc70acb168bfaca4c2542ed"},
+    {file = "black-24.8.0.tar.gz", hash = "sha256:2500945420b6784c38b9ee885af039f5e7471ef284ab03fa35ecdde4688cd83f"},
+]
+
+[package.dependencies]
+click = ">=8.0.0"
+mypy-extensions = ">=0.4.3"
+packaging = ">=22.0"
+pathspec = ">=0.9.0"
+platformdirs = ">=2"
+
+[package.extras]
+colorama = ["colorama (>=0.4.3)"]
+d = ["aiohttp (>=3.7.4)", "aiohttp (>=3.7.4,!=3.9.0)"]
+jupyter = ["ipython (>=7.8.0)", "tokenize-rt (>=3.2.0)"]
+uvloop = ["uvloop (>=0.15.2)"]
+
 [[package]]
 name = "cachetools"
-version = "5.3.3"
+version = "5.5.0"
 description = "Extensible memoizing collections and decorators"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "cachetools-5.3.3-py3-none-any.whl", hash = "sha256:0abad1021d3f8325b2fc1d2e9c8b9c9d57b04c3932657a72465447332c24d945"},
-    {file = "cachetools-5.3.3.tar.gz", hash = "sha256:ba29e2dfa0b8b556606f097407ed1aa62080ee108ab0dc5ec9d6a723a007d105"},
+    {file = "cachetools-5.5.0-py3-none-any.whl", hash = "sha256:02134e8439cdc2ffb62023ce1debca2944c3f289d66bb17ead3ab3dede74b292"},
+    {file = "cachetools-5.5.0.tar.gz", hash = "sha256:2cc24fb4cbe39633fb7badd9db9ca6295d766d9c2995f245725a46715d050f2a"},
 ]
 
 [[package]]
 name = "cattrs"
-version = "23.2.3"
+version = "24.1.0"
 description = "Composable complex class support for attrs and dataclasses."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "cattrs-23.2.3-py3-none-any.whl", hash = "sha256:0341994d94971052e9ee70662542699a3162ea1e0c62f7ce1b4a57f563685108"},
-    {file = "cattrs-23.2.3.tar.gz", hash = "sha256:a934090d95abaa9e911dac357e3a8699e0b4b14f8529bcc7d2b1ad9d51672b9f"},
+    {file = "cattrs-24.1.0-py3-none-any.whl", hash = "sha256:043bb8af72596432a7df63abcff0055ac0f198a4d2e95af8db5a936a7074a761"},
+    {file = "cattrs-24.1.0.tar.gz", hash = "sha256:8274f18b253bf7674a43da851e3096370d67088165d23138b04a1c04c8eaf48e"},
 ]
 
 [package.dependencies]
 attrs = ">=23.1.0"
-exceptiongroup = {version = ">=1.1.1", markers = "python_version < \"3.11\""}
-typing-extensions = {version = ">=4.1.0,<4.6.3 || >4.6.3", markers = "python_version < \"3.11\""}
 
 [package.extras]
 bson = ["pymongo (>=4.4.0)"]
 cbor2 = ["cbor2 (>=5.4.6)"]
 msgpack = ["msgpack (>=1.0.5)"]
+msgspec = ["msgspec (>=0.18.5)"]
 orjson = ["orjson (>=3.9.2)"]
 pyyaml = ["pyyaml (>=6.0)"]
 tomlkit = ["tomlkit (>=0.11.8)"]
@@ -202,13 +243,13 @@ ujson = ["ujson (>=5.7.0)"]
 
 [[package]]
 name = "certifi"
-version = "2024.2.2"
+version = "2024.7.4"
 description = "Python package for providing Mozilla's CA Bundle."
 optional = false
 python-versions = ">=3.6"
 files = [
-    {file = "certifi-2024.2.2-py3-none-any.whl", hash = "sha256:dc383c07b76109f368f6106eee2b593b04a011ea4d55f652c6ca24a754d1cdd1"},
-    {file = "certifi-2024.2.2.tar.gz", hash = "sha256:0569859f95fc761b18b45ef421b1290a0f65f147e92a1e5eb3e635f9a5e4e66f"},
+    {file = "certifi-2024.7.4-py3-none-any.whl", hash = "sha256:c198e21b1289c2ab85ee4e67bb4b4ef3ead0892059901a8d5b622f24a1101e90"},
+    {file = "certifi-2024.7.4.tar.gz", hash = "sha256:5a1e7645bc0ec61a09e26c36f6106dd4cf40c6db3a1fb6352b0244e7fb057c7b"},
 ]
 
 [[package]]
@@ -345,9 +386,6 @@ files = [
     {file = "class_resolver-0.4.3.tar.gz", hash = "sha256:18bb9983cb377f669e5900979de4aa65449d95ead61838fa12862958998c71a2"},
 ]
 
-[package.dependencies]
-importlib-metadata = {version = ">3.6", markers = "python_version < \"3.10\""}
-
 [package.extras]
 click = ["click"]
 docdata = ["docdata"]
@@ -404,13 +442,13 @@ files = [
 
 [[package]]
 name = "curies"
-version = "0.7.9"
+version = "0.7.10"
 description = "Idiomatic conversion between URIs and compact URIs (CURIEs)."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "curies-0.7.9-py3-none-any.whl", hash = "sha256:e4c5beb91642376953c94db0ee2fb5d2b011c3b16749516436114ba61442f260"},
-    {file = "curies-0.7.9.tar.gz", hash = "sha256:3b63c5fea7b0e967629a3a384b1a8c59b56c503487c1dcbacddeab59e25db4d8"},
+    {file = "curies-0.7.10-py3-none-any.whl", hash = "sha256:ad80f420dd76b6f3e921a245370ff6ab7473c48c29c17254970c03cd2e58af5f"},
+    {file = "curies-0.7.10.tar.gz", hash = "sha256:98a7ceb94710fab3a02727a7f85ba0719dd22be5fc8b5f2ad1d7d4cfc47d64ce"},
 ]
 
 [package.dependencies]
@@ -492,24 +530,24 @@ files = [
 
 [[package]]
 name = "docutils"
-version = "0.20.1"
+version = "0.21.2"
 description = "Docutils -- Python Documentation Utilities"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.9"
 files = [
-    {file = "docutils-0.20.1-py3-none-any.whl", hash = "sha256:96f387a2c5562db4476f09f13bbab2192e764cac08ebbf3a34a95d9b1e4a59d6"},
-    {file = "docutils-0.20.1.tar.gz", hash = "sha256:f08a4e276c3a1583a86dce3e34aba3fe04d02bba2dd51ed16106244e8a923e3b"},
+    {file = "docutils-0.21.2-py3-none-any.whl", hash = "sha256:dafca5b9e384f0e419294eb4d2ff9fa826435bf15f15b7bd45723e8ad76811b2"},
+    {file = "docutils-0.21.2.tar.gz", hash = "sha256:3a6b18732edf182daa3cd12775bbb338cf5691468f91eeeb109deff6ebfa986f"},
 ]
 
 [[package]]
 name = "dunamai"
-version = "1.20.0"
+version = "1.22.0"
 description = "Dynamic version generation"
 optional = false
 python-versions = ">=3.5"
 files = [
-    {file = "dunamai-1.20.0-py3-none-any.whl", hash = "sha256:a2185c227351a52a013c7d7a695d3f3cb6625c3eed14a5295adbbcc7e2f7f8d4"},
-    {file = "dunamai-1.20.0.tar.gz", hash = "sha256:c3f1ee64a1e6cc9ebc98adafa944efaccd0db32482d2177e59c1ff6bdf23cd70"},
+    {file = "dunamai-1.22.0-py3-none-any.whl", hash = "sha256:eab3894b31e145bd028a74b13491c57db01986a7510482c9b5fff3b4e53d77b7"},
+    {file = "dunamai-1.22.0.tar.gz", hash = "sha256:375a0b21309336f0d8b6bbaea3e038c36f462318c68795166e31f9873fdad676"},
 ]
 
 [package.dependencies]
@@ -545,20 +583,6 @@ requests = "*"
 [package.extras]
 dev = ["flake8", "ipython", "mock", "pytest", "pytest-cov", "restview", "setuptools", "sphinx", "sphinx-rtd-theme", "tox", "vcrpy", "yapf"]
 
-[[package]]
-name = "exceptiongroup"
-version = "1.2.1"
-description = "Backport of PEP 654 (exception groups)"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "exceptiongroup-1.2.1-py3-none-any.whl", hash = "sha256:5258b9ed329c5bbdd31a309f53cbfb0b155341807f6ff7606a1e801a891b29ad"},
-    {file = "exceptiongroup-1.2.1.tar.gz", hash = "sha256:a4785e48b045528f5bfe627b6ad554ff32def154f42372786903b7abcfe1aa16"},
-]
-
-[package.extras]
-test = ["pytest (>=6)"]
-
 [[package]]
 name = "fastobo"
 version = "0.12.3"
@@ -616,20 +640,36 @@ files = [
 
 [[package]]
 name = "filelock"
-version = "3.14.0"
+version = "3.15.4"
 description = "A platform independent file lock."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "filelock-3.14.0-py3-none-any.whl", hash = "sha256:43339835842f110ca7ae60f1e1c160714c5a6afd15a2873419ab185334975c0f"},
-    {file = "filelock-3.14.0.tar.gz", hash = "sha256:6ea72da3be9b8c82afd3edcf99f2fffbb5076335a5ae4d03248bb5b6c3eae78a"},
+    {file = "filelock-3.15.4-py3-none-any.whl", hash = "sha256:6ca1fffae96225dab4c6eaf1c4f4f28cd2568d3ec2a44e15a08520504de468e7"},
+    {file = "filelock-3.15.4.tar.gz", hash = "sha256:2207938cbc1844345cb01a5a95524dae30f0ce089eba5b00378295a17e3e90cb"},
 ]
 
 [package.extras]
 docs = ["furo (>=2023.9.10)", "sphinx (>=7.2.6)", "sphinx-autodoc-typehints (>=1.25.2)"]
-testing = ["covdefaults (>=2.3)", "coverage (>=7.3.2)", "diff-cover (>=8.0.1)", "pytest (>=7.4.3)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)", "pytest-timeout (>=2.2)"]
+testing = ["covdefaults (>=2.3)", "coverage (>=7.3.2)", "diff-cover (>=8.0.1)", "pytest (>=7.4.3)", "pytest-asyncio (>=0.21)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)", "pytest-timeout (>=2.2)", "virtualenv (>=20.26.2)"]
 typing = ["typing-extensions (>=4.8)"]
 
+[[package]]
+name = "flake8"
+version = "7.1.1"
+description = "the modular source code checker: pep8 pyflakes and co"
+optional = false
+python-versions = ">=3.8.1"
+files = [
+    {file = "flake8-7.1.1-py2.py3-none-any.whl", hash = "sha256:597477df7860daa5aa0fdd84bf5208a043ab96b8e96ab708770ae0364dd03213"},
+    {file = "flake8-7.1.1.tar.gz", hash = "sha256:049d058491e228e03e67b390f311bbf88fce2dbaa8fa673e7aea87b7198b8d38"},
+]
+
+[package.dependencies]
+mccabe = ">=0.7.0,<0.8.0"
+pycodestyle = ">=2.12.0,<2.13.0"
+pyflakes = ">=3.2.0,<3.3.0"
+
 [[package]]
 name = "fqdn"
 version = "1.5.1"
@@ -662,20 +702,20 @@ rfc3987 = "*"
 
 [[package]]
 name = "furo"
-version = "2024.4.27"
+version = "2024.8.6"
 description = "A clean customisable Sphinx documentation theme."
 optional = false
 python-versions = ">=3.8"
 files = [
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+    {file = "furo-2024.8.6-py3-none-any.whl", hash = "sha256:6cd97c58b47813d3619e63e9081169880fbe331f0ca883c871ff1f3f11814f5c"},
+    {file = "furo-2024.8.6.tar.gz", hash = "sha256:b63e4cee8abfc3136d3bc03a3d45a76a850bada4d6374d24c1716b0e01394a01"},
 ]
 
 [package.dependencies]
 beautifulsoup4 = "*"
 pygments = ">=2.7"
-sphinx = ">=6.0,<8.0"
-sphinx-basic-ng = "*"
+sphinx = ">=6.0,<9.0"
+sphinx-basic-ng = ">=1.0.0.beta2"
 
 [[package]]
 name = "ghp-import"
@@ -783,13 +823,13 @@ test = ["objgraph", "psutil"]
 
 [[package]]
 name = "griffe"
-version = "0.44.0"
+version = "1.2.0"
 description = "Signatures for entire Python programs. Extract the structure, the frame, the skeleton of your project, to generate API documentation or find breaking changes in your API."
 optional = false
 python-versions = ">=3.8"
 files = [
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-    {file = "griffe-0.44.0.tar.gz", hash = "sha256:34aee1571042f9bf00529bc715de4516fb6f482b164e90d030300601009e0223"},
+    {file = "griffe-1.2.0-py3-none-any.whl", hash = "sha256:a8b2fcb1ecdc5a412e646b0b4375eb20a5d2eac3a11dd8c10c56967a4097663c"},
+    {file = "griffe-1.2.0.tar.gz", hash = "sha256:1c9f6ef7455930f3f9b0c4145a961c90385d1e2cbc496f7796fbff560ec60d31"},
 ]
 
 [package.dependencies]
@@ -840,13 +880,13 @@ trio = ["trio (>=0.22.0,<0.26.0)"]
 
 [[package]]
 name = "httpx"
-version = "0.27.0"
+version = "0.27.2"
 description = "The next generation HTTP client."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "httpx-0.27.0-py3-none-any.whl", hash = "sha256:71d5465162c13681bff01ad59b2cc68dd838ea1f10e51574bac27103f00c91a5"},
-    {file = "httpx-0.27.0.tar.gz", hash = "sha256:a0cb88a46f32dc874e04ee956e4c2764aba2aa228f650b06788ba6bda2962ab5"},
+    {file = "httpx-0.27.2-py3-none-any.whl", hash = "sha256:7bb2708e112d8fdd7829cd4243970f0c223274051cb35ee80c03301ee29a3df0"},
+    {file = "httpx-0.27.2.tar.gz", hash = "sha256:f7c2be1d2f3c3c3160d441802406b206c2b76f5947b11115e6df10c6c65e66c2"},
 ]
 
 [package.dependencies]
@@ -861,114 +901,120 @@ brotli = ["brotli", "brotlicffi"]
 cli = ["click (==8.*)", "pygments (==2.*)", "rich (>=10,<14)"]
 http2 = ["h2 (>=3,<5)"]
 socks = ["socksio (==1.*)"]
+zstd = ["zstandard (>=0.18.0)"]
 
 [[package]]
 name = "idna"
-version = "3.7"
+version = "3.8"
 description = "Internationalized Domain Names in Applications (IDNA)"
 optional = false
-python-versions = ">=3.5"
+python-versions = ">=3.6"
 files = [
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-    {file = "idna-3.7.tar.gz", hash = "sha256:028ff3aadf0609c1fd278d8ea3089299412a7a8b9bd005dd08b9f8285bcb5cfc"},
+    {file = "idna-3.8-py3-none-any.whl", hash = "sha256:050b4e5baadcd44d760cedbd2b8e639f2ff89bbc7a5730fcc662954303377aac"},
+    {file = "idna-3.8.tar.gz", hash = "sha256:d838c2c0ed6fced7693d5e8ab8e734d5f8fda53a039c0164afb0b82e771e3603"},
 ]
 
 [[package]]
 name = "ijson"
-version = "3.2.3"
+version = "3.3.0"
 description = "Iterative JSON parser with standard Python iterator interfaces"
 optional = false
 python-versions = "*"
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 name = "iniconfig"
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 [package.extras]
 i18n = ["Babel (>=2.7)"]
 
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+
 [[package]]
 name = "json-flattener"
 version = "0.1.9"
@@ -1159,24 +1276,24 @@ ply = "*"
 
 [[package]]
 name = "jsonpointer"
-version = "2.4"
+version = "3.0.0"
 description = "Identify specific nodes in a JSON document (RFC 6901)"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*, !=3.6.*"
+python-versions = ">=3.7"
 files = [
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 ]
 
 [[package]]
 name = "jsonschema"
-version = "4.21.1"
+version = "4.23.0"
 description = "An implementation of JSON Schema validation for Python"
 optional = false
 python-versions = ">=3.8"
 files = [
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 ]
 
 [package.dependencies]
@@ -1195,7 +1312,7 @@ webcolors = {version = ">=1.11", optional = true, markers = "extra == \"format\"
 
 [package.extras]
 format = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-validator", "rfc3987", "uri-template", "webcolors (>=1.11)"]
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+format-nongpl = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-validator", "rfc3986-validator (>0.1.0)", "uri-template", "webcolors (>=24.6.0)"]
 
 [[package]]
 name = "jsonschema-specifications"
@@ -1228,13 +1345,13 @@ linkml-runtime = ">=1.1.24"
 
 [[package]]
 name = "kgcl-schema"
-version = "0.6.8"
+version = "0.6.9"
 description = "Schema for the KGCL project."
 optional = false
 python-versions = "<4.0,>=3.9"
 files = [
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 ]
 
 [package.dependencies]
@@ -1245,13 +1362,13 @@ prefixmaps = ">=0.2.0,<0.3.0"
 
 [[package]]
 name = "lark"
-version = "1.1.9"
+version = "1.2.2"
 description = "a modern parsing library"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.8"
 files = [
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 ]
 
 [package.extras]
@@ -1262,13 +1379,13 @@ regex = ["regex"]
 
 [[package]]
 name = "linkml"
-version = "1.7.8"
+version = "1.8.3"
 description = "Linked Open Data Modeling Language"
 optional = false
 python-versions = "<4.0.0,>=3.8.1"
 files = [
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 ]
 
 [package.dependencies]
@@ -1281,7 +1398,7 @@ jinja2 = ">=3.1.0"
 jsonasobj2 = ">=1.0.3,<2.0.0"
 jsonschema = {version = ">=4.0.0", extras = ["format"]}
 linkml-dataops = "*"
-linkml-runtime = ">=1.7.4"
+linkml-runtime = ">=1.8.1,<2.0.0"
 openpyxl = "*"
 parse = "*"
 prefixcommons = ">=0.1.7"
@@ -1322,13 +1439,13 @@ linkml-runtime = ">=1.1.6"
 
 [[package]]
 name = "linkml-renderer"
-version = "0.3.0"
+version = "0.3.1"
 description = "linkml-renderer"
 optional = false
-python-versions = ">=3.8,<4.0"
+python-versions = "<4.0,>=3.8"
 files = [
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 ]
 
 [package.dependencies]
@@ -1339,13 +1456,13 @@ pydantic = "*"
 
 [[package]]
 name = "linkml-runtime"
-version = "1.7.5"
+version = "1.8.2"
 description = "Runtime environment for LinkML, the Linked open data modeling language"
 optional = false
 python-versions = "<4.0,>=3.8"
 files = [
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 ]
 
 [package.dependencies]
@@ -1393,166 +1510,149 @@ test = ["black (>=24.1.0)", "cogapp", "mypy", "numpy", "pytest", "pytest-httpx",
 
 [[package]]
 name = "lxml"
-version = "5.2.1"
+version = "5.3.0"
 description = "Powerful and Pythonic XML processing library combining libxml2/libxslt with the ElementTree API."
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 python-versions = ">=3.6"
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 [package.extras]
@@ -1560,22 +1660,19 @@ cssselect = ["cssselect (>=0.7)"]
 html-clean = ["lxml-html-clean"]
 html5 = ["html5lib"]
 htmlsoup = ["BeautifulSoup4"]
-source = ["Cython (>=3.0.10)"]
+source = ["Cython (>=3.0.11)"]
 
 [[package]]
 name = "markdown"
-version = "3.6"
+version = "3.7"
 description = "Python implementation of John Gruber's Markdown."
 optional = false
 python-versions = ">=3.8"
 files = [
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 ]
 
-[package.dependencies]
-importlib-metadata = {version = ">=4.4", markers = "python_version < \"3.10\""}
-
 [package.extras]
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 testing = ["coverage", "pyyaml"]
@@ -1673,15 +1770,26 @@ files = [
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 ]
 
+[[package]]
+name = "mccabe"
+version = "0.7.0"
+description = "McCabe checker, plugin for flake8"
+optional = false
+python-versions = ">=3.6"
+files = [
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+]
+
 [[package]]
 name = "mdit-py-plugins"
-version = "0.4.0"
+version = "0.4.1"
 description = "Collection of plugins for markdown-it-py"
 optional = false
 python-versions = ">=3.8"
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@@ -1894,24 +2000,35 @@ click = "*"
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 ]
 
 [[package]]
 name = "oaklib"
-version = "0.6.5"
+version = "0.6.16"
 description = "Ontology Access Kit: Python library for common ontology operations over a variety of backends"
 optional = false
 python-versions = "<4.0.0,>=3.9"
 files = [
-    {file = "oaklib-0.6.5-py3-none-any.whl", hash = "sha256:9f5d66193133e639ddef4ed1819accf9f96560c86017030a4cf1f2eba6de2396"},
-    {file = "oaklib-0.6.5.tar.gz", hash = "sha256:ba3036772dc9a95ecf1272e32e7e99f4954a1d7fd1fd0a94ccfca656c0ea32ca"},
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+    {file = "oaklib-0.6.16.tar.gz", hash = "sha256:7c95ae53ff1c844e79a61c37b37c4a6328a1759e55702a58d779fb934a678db1"},
 ]
 
 [package.dependencies]
@@ -2021,15 +2154,15 @@ appdirs = ">=1.4.4"
 class-resolver = ">=0.4.2"
 click = "*"
 curies = ">=0.6.6"
-defusedxml = ">=0.7.1,<0.8.0"
+defusedxml = ">=0.7.1"
 eutils = ">=0.6.0"
 funowl = ">=0.2.0"
-jsonlines = ">=4.0.0,<5.0.0"
+jsonlines = "*"
 kgcl-rdflib = "0.5.0"
-kgcl-schema = ">=0.6.8,<0.7.0"
+kgcl-schema = ">=0.6.9,<0.7.0"
 linkml-renderer = ">=0.3.0"
 linkml-runtime = ">=1.5.3"
-ndex2 = ">=3.5.0,<4.0.0"
+ndex2 = ">=3.5.0"
 networkx = ">=2.7.1"
 ols-client = ">=0.1.1"
 ontoportal-client = ">=0.0.3"
@@ -2044,12 +2177,12 @@ semsql = ">=0.3.1"
 SPARQLWrapper = "*"
 SQLAlchemy = ">=1.4.32"
 sssom = ">=0.4.4,<0.5.0"
-tenacity = ">=8.2.3,<9.0.0"
+tenacity = ">=8.2.3"
 
 [package.extras]
 gilda = ["gilda (>=1.0.0)", "urllib3 (<2)"]
-llm = ["aiohttp", "html2text", "llm"]
-semsimian = ["semsimian (>=0.2.15)"]
+llm = ["aiohttp", "html2text", "llm (>=0.14,<0.15)"]
+semsimian = ["semsimian (>=0.2.18)"]
 
 [[package]]
 name = "ols-client"
@@ -2094,36 +2227,37 @@ tests = ["coverage", "pytest", "unittest-templates"]
 
 [[package]]
 name = "openai"
-version = "1.23.6"
+version = "1.43.0"
 description = "The official Python library for the openai API"
 optional = false
 python-versions = ">=3.7.1"
 files = [
-    {file = "openai-1.23.6-py3-none-any.whl", hash = "sha256:f406c76ba279d16b9aca5a89cee0d968488e39f671f4dc6f0d690ac3c6f6fca1"},
-    {file = "openai-1.23.6.tar.gz", hash = "sha256:612de2d54cf580920a1156273f84aada6b3dca26d048f62eb5364a4314d7f449"},
+    {file = "openai-1.43.0-py3-none-any.whl", hash = "sha256:1a748c2728edd3a738a72a0212ba866f4fdbe39c9ae03813508b267d45104abe"},
+    {file = "openai-1.43.0.tar.gz", hash = "sha256:e607aff9fc3e28eade107e5edd8ca95a910a4b12589336d3cbb6bfe2ac306b3c"},
 ]
 
 [package.dependencies]
 anyio = ">=3.5.0,<5"
 distro = ">=1.7.0,<2"
 httpx = ">=0.23.0,<1"
+jiter = ">=0.4.0,<1"
 pydantic = ">=1.9.0,<3"
 sniffio = "*"
 tqdm = ">4"
-typing-extensions = ">=4.7,<5"
+typing-extensions = ">=4.11,<5"
 
 [package.extras]
 datalib = ["numpy (>=1)", "pandas (>=1.2.3)", "pandas-stubs (>=1.1.0.11)"]
 
 [[package]]
 name = "openpyxl"
-version = "3.1.2"
+version = "3.1.5"
 description = "A Python library to read/write Excel 2010 xlsx/xlsm files"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.8"
 files = [
-    {file = "openpyxl-3.1.2-py2.py3-none-any.whl", hash = "sha256:f91456ead12ab3c6c2e9491cf33ba6d08357d802192379bb482f1033ade496f5"},
-    {file = "openpyxl-3.1.2.tar.gz", hash = "sha256:a6f5977418eff3b2d5500d54d9db50c8277a368436f4e4f8ddb1be3422870184"},
+    {file = "openpyxl-3.1.5-py2.py3-none-any.whl", hash = "sha256:5282c12b107bffeef825f4617dc029afaf41d0ea60823bbb665ef3079dc79de2"},
+    {file = "openpyxl-3.1.5.tar.gz", hash = "sha256:cf0e3cf56142039133628b5acffe8ef0c12bc902d2aadd3e0fe5878dc08d1050"},
 ]
 
 [package.dependencies]
@@ -2131,13 +2265,13 @@ et-xmlfile = "*"
 
 [[package]]
 name = "packaging"
-version = "24.0"
+version = "24.1"
 description = "Core utilities for Python packages"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
-    {file = "packaging-24.0-py3-none-any.whl", hash = "sha256:2ddfb553fdf02fb784c234c7ba6ccc288296ceabec964ad2eae3777778130bc5"},
-    {file = "packaging-24.0.tar.gz", hash = "sha256:eb82c5e3e56209074766e6885bb04b8c38a0c015d0a30036ebe7ece34c9989e9"},
+    {file = "packaging-24.1-py3-none-any.whl", hash = "sha256:5b8f2217dbdbd2f7f384c41c628544e6d52f2d0f53c6d0c3ea61aa5d1d7ff124"},
+    {file = "packaging-24.1.tar.gz", hash = "sha256:026ed72c8ed3fcce5bf8950572258698927fd1dbda10a5e981cdf0ac37f4f002"},
 ]
 
 [[package]]
@@ -2180,9 +2314,8 @@ files = [
 
 [package.dependencies]
 numpy = [
-    {version = ">=1.22.4", markers = "python_version < \"3.11\""},
-    {version = ">=1.23.2", markers = "python_version == \"3.11\""},
     {version = ">=1.26.0", markers = "python_version >= \"3.12\""},
+    {version = ">=1.23.2", markers = "python_version == \"3.11\""},
 ]
 python-dateutil = ">=2.8.2"
 pytz = ">=2020.1"
@@ -2231,13 +2364,13 @@ sqlalchemy = "*"
 
 [[package]]
 name = "parse"
-version = "1.20.1"
+version = "1.20.2"
 description = "parse() is the opposite of format()"
 optional = false
 python-versions = "*"
 files = [
-    {file = "parse-1.20.1-py2.py3-none-any.whl", hash = "sha256:76ddd5214255ae711db4c512be636151fbabaa948c6f30115aecc440422ca82c"},
-    {file = "parse-1.20.1.tar.gz", hash = "sha256:09002ca350ad42e76629995f71f7b518670bcf93548bdde3684fd55d2be51975"},
+    {file = "parse-1.20.2-py2.py3-none-any.whl", hash = "sha256:967095588cb802add9177d0c0b6133b5ba33b1ea9007ca800e526f42a85af558"},
+    {file = "parse-1.20.2.tar.gz", hash = "sha256:b41d604d16503c79d81af5165155c0b20f6c8d6c559efa66b4b695c3e5a0a0ce"},
 ]
 
 [[package]]
@@ -2253,24 +2386,24 @@ files = [
 
 [[package]]
 name = "pip"
-version = "24.0"
+version = "24.2"
 description = "The PyPA recommended tool for installing Python packages."
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
-    {file = "pip-24.0-py3-none-any.whl", hash = "sha256:ba0d021a166865d2265246961bec0152ff124de910c5cc39f1156ce3fa7c69dc"},
-    {file = "pip-24.0.tar.gz", hash = "sha256:ea9bd1a847e8c5774a5777bb398c19e80bcd4e2aa16a4b301b718fe6f593aba2"},
+    {file = "pip-24.2-py3-none-any.whl", hash = "sha256:2cd581cf58ab7fcfca4ce8efa6dcacd0de5bf8d0a3eb9ec927e07405f4d9e2a2"},
+    {file = "pip-24.2.tar.gz", hash = "sha256:5b5e490b5e9cb275c879595064adce9ebd31b854e3e803740b72f9ccf34a45b8"},
 ]
 
 [[package]]
 name = "platformdirs"
-version = "4.2.1"
+version = "4.2.2"
 description = "A small Python package for determining appropriate platform-specific dirs, e.g. a `user data dir`."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "platformdirs-4.2.1-py3-none-any.whl", hash = "sha256:17d5a1161b3fd67b390023cb2d3b026bbd40abde6fdb052dfbd3a29c3ba22ee1"},
-    {file = "platformdirs-4.2.1.tar.gz", hash = "sha256:031cd18d4ec63ec53e82dceaac0417d218a6863f7745dfcc9efe7793b7039bdf"},
+    {file = "platformdirs-4.2.2-py3-none-any.whl", hash = "sha256:2d7a1657e36a80ea911db832a8a6ece5ee53d8de21edd5cc5879af6530b1bfee"},
+    {file = "platformdirs-4.2.2.tar.gz", hash = "sha256:38b7b51f512eed9e84a22788b4bce1de17c0adb134d6becb09836e37d8654cd3"},
 ]
 
 [package.extras]
@@ -2306,17 +2439,17 @@ files = [
 
 [[package]]
 name = "poetry-dynamic-versioning"
-version = "1.2.0"
+version = "1.4.0"
 description = "Plugin for Poetry to enable dynamic versioning based on VCS tags"
 optional = false
-python-versions = ">=3.7,<4.0"
+python-versions = "<4.0,>=3.7"
 files = [
-    {file = "poetry_dynamic_versioning-1.2.0-py3-none-any.whl", hash = "sha256:8dbef9728d866eb3d1a4edbb29c7ac8abdf96e3ca659473e950e2c016f3785ec"},
-    {file = "poetry_dynamic_versioning-1.2.0.tar.gz", hash = "sha256:1a7bbdba2530499e73dfc6ac0af19de29020ab4aaa3e507573877114e6b71ed6"},
+    {file = "poetry_dynamic_versioning-1.4.0-py3-none-any.whl", hash = "sha256:d6727d33d1c65850039cd804013a43780e0a3c9a3d693cf557ab87aa3891f148"},
+    {file = "poetry_dynamic_versioning-1.4.0.tar.gz", hash = "sha256:725178bd50a22f2dd4035de7f965151e14ecf8f7f19996b9e536f4c5559669a7"},
 ]
 
 [package.dependencies]
-dunamai = ">=1.18.0,<2.0.0"
+dunamai = ">=1.21.0,<2.0.0"
 jinja2 = ">=2.11.1,<4"
 tomlkit = ">=0.4"
 
@@ -2342,13 +2475,13 @@ requests = ">=2.28.1,<3.0.0"
 
 [[package]]
 name = "prefixmaps"
-version = "0.2.4"
+version = "0.2.5"
 description = "A python library for retrieving semantic prefix maps"
 optional = false
 python-versions = "<4.0,>=3.8"
 files = [
-    {file = "prefixmaps-0.2.4-py3-none-any.whl", hash = "sha256:89bf0e6fb08c276f754f9624c42adf2e87c64ee92a3dde1f7eff01f22d85b512"},
-    {file = "prefixmaps-0.2.4.tar.gz", hash = "sha256:ae86a1b31189d0516d199756d5808f75f44b39e86546c356cc78c0fe8d2078af"},
+    {file = "prefixmaps-0.2.5-py3-none-any.whl", hash = "sha256:68caa04b3a6a8e058aa1c55affe32c62e44b564d031d63f768e267b796a1f3ee"},
+    {file = "prefixmaps-0.2.5.tar.gz", hash = "sha256:aaccd2425ade2ea97a502c58be49fe8f3536e3d5e919712ae0358a39fc800799"},
 ]
 
 [package.dependencies]
@@ -2372,129 +2505,163 @@ fastobo = ">=0.12.2,<0.13.0"
 networkx = ">=2.3,<4.0"
 python-dateutil = ">=2.8,<3.0"
 
+[[package]]
+name = "pycodestyle"
+version = "2.12.1"
+description = "Python style guide checker"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "pycodestyle-2.12.1-py2.py3-none-any.whl", hash = "sha256:46f0fb92069a7c28ab7bb558f05bfc0110dac69a0cd23c61ea0040283a9d78b3"},
+    {file = "pycodestyle-2.12.1.tar.gz", hash = "sha256:6838eae08bbce4f6accd5d5572075c63626a15ee3e6f842df996bf62f6d73521"},
+]
+
 [[package]]
 name = "pydantic"
-version = "2.7.1"
+version = "2.8.2"
 description = "Data validation using Python type hints"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "pydantic-2.7.1-py3-none-any.whl", hash = "sha256:e029badca45266732a9a79898a15ae2e8b14840b1eabbb25844be28f0b33f3d5"},
-    {file = "pydantic-2.7.1.tar.gz", hash = "sha256:e9dbb5eada8abe4d9ae5f46b9939aead650cd2b68f249bb3a8139dbe125803cc"},
+    {file = "pydantic-2.8.2-py3-none-any.whl", hash = "sha256:73ee9fddd406dc318b885c7a2eab8a6472b68b8fb5ba8150949fc3db939f23c8"},
+    {file = "pydantic-2.8.2.tar.gz", hash = "sha256:6f62c13d067b0755ad1c21a34bdd06c0c12625a22b0fc09c6b149816604f7c2a"},
 ]
 
 [package.dependencies]
 annotated-types = ">=0.4.0"
-pydantic-core = "2.18.2"
-typing-extensions = ">=4.6.1"
+pydantic-core = "2.20.1"
+typing-extensions = [
+    {version = ">=4.12.2", markers = "python_version >= \"3.13\""},
+    {version = ">=4.6.1", markers = "python_version < \"3.13\""},
+]
 
 [package.extras]
 email = ["email-validator (>=2.0.0)"]
 
 [[package]]
 name = "pydantic-core"
-version = "2.18.2"
+version = "2.20.1"
 description = "Core functionality for Pydantic validation and serialization"
 optional = false
 python-versions = ">=3.8"
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+description = "passive checker of Python programs"
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 [[package]]
@@ -2529,13 +2696,13 @@ pyyaml = "*"
 
 [[package]]
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-version = "3.1.2"
+version = "3.1.4"
 description = "pyparsing module - Classes and methods to define and execute parsing grammars"
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 [package.extras]
@@ -2543,22 +2710,21 @@ diagrams = ["jinja2", "railroad-diagrams"]
 
 [[package]]
 name = "pyproject-api"
-version = "1.6.1"
+version = "1.7.1"
 description = "API to interact with the python pyproject.toml based projects"
 optional = false
 python-versions = ">=3.8"
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 [package.dependencies]
-packaging = ">=23.1"
-tomli = {version = ">=2.0.1", markers = "python_version < \"3.11\""}
+packaging = ">=24.1"
 
 [package.extras]
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+docs = ["furo (>=2024.5.6)", "sphinx-autodoc-typehints (>=2.2.1)"]
+testing = ["covdefaults (>=2.3)", "pytest (>=8.2.2)", "pytest-cov (>=5)", "pytest-mock (>=3.14)", "setuptools (>=70.1)"]
 
 [[package]]
 name = "pyreadline3"
@@ -2654,22 +2820,20 @@ xml = ["lxml"]
 
 [[package]]
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+version = "8.3.2"
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 optional = false
 python-versions = ">=3.8"
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 iniconfig = "*"
 packaging = "*"
-pluggy = ">=1.5,<2.0"
-tomli = {version = ">=1", markers = "python_version < \"3.11\""}
+pluggy = ">=1.5,<2"
 
 [package.extras]
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@@ -2717,13 +2881,13 @@ cli = ["click (>=5.0)"]
 
 [[package]]
 name = "python-ulid"
-version = "2.5.0"
+version = "2.7.0"
 description = "Universally unique lexicographically sortable identifier"
 optional = false
 python-versions = ">=3.9"
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 [[package]]
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 description = "JSON Referencing + Python"
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 [package.dependencies]
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 [package.dependencies]
-numpy = ">=1.22.4,<2.3"
+numpy = ">=1.23.5,<2.3"
 
 [package.extras]
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+test = ["Cython", "array-api-strict (>=2.0)", "asv", "gmpy2", "hypothesis (>=6.30)", "meson", "mpmath", "ninja", "pooch", "pytest", "pytest-cov", "pytest-timeout", "pytest-xdist", "scikit-umfpack", "threadpoolctl"]
 
 [[package]]
 name = "semsql"
@@ -3237,19 +3415,23 @@ SQLAlchemy-Utils = ">=0.38.2,<0.39.0"
 
 [[package]]
 name = "setuptools"
-version = "69.5.1"
+version = "74.0.0"
 description = "Easily download, build, install, upgrade, and uninstall Python packages"
 optional = false
 python-versions = ">=3.8"
 files = [
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 [package.extras]
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+type = ["importlib-metadata (>=7.0.2)", "jaraco.develop (>=7.21)", "mypy (==1.11.*)", "pytest-mypy"]
 
 [[package]]
 name = "shexjsg"
@@ -3311,13 +3493,13 @@ files = [
 
 [[package]]
 name = "soupsieve"
-version = "2.5"
+version = "2.6"
 description = "A modern CSS selector implementation for Beautiful Soup."
 optional = false
 python-versions = ">=3.8"
 files = [
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 ]
 
 [[package]]
@@ -3358,27 +3540,26 @@ pandas = ["pandas (>=1.3.5)"]
 
 [[package]]
 name = "sphinx"
-version = "7.3.7"
+version = "8.0.2"
 description = "Python documentation generator"
 optional = false
-python-versions = ">=3.9"
+python-versions = ">=3.10"
 files = [
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 [package.dependencies]
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-babel = ">=2.9"
-colorama = {version = ">=0.4.5", markers = "sys_platform == \"win32\""}
-docutils = ">=0.18.1,<0.22"
+alabaster = ">=0.7.14"
+babel = ">=2.13"
+colorama = {version = ">=0.4.6", markers = "sys_platform == \"win32\""}
+docutils = ">=0.20,<0.22"
 imagesize = ">=1.3"
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-Jinja2 = ">=3.0"
-packaging = ">=21.0"
-Pygments = ">=2.14"
-requests = ">=2.25.0"
-snowballstemmer = ">=2.0"
+Jinja2 = ">=3.1"
+packaging = ">=23.0"
+Pygments = ">=2.17"
+requests = ">=2.30.0"
+snowballstemmer = ">=2.2"
 sphinxcontrib-applehelp = "*"
 sphinxcontrib-devhelp = "*"
 sphinxcontrib-htmlhelp = ">=2.0.0"
@@ -3386,22 +3567,21 @@ sphinxcontrib-jsmath = "*"
 sphinxcontrib-qthelp = "*"
 sphinxcontrib-serializinghtml = ">=1.1.9"
 sphinxcontrib-websupport = {version = "*", optional = true, markers = "extra == \"docs\""}
-tomli = {version = ">=2", markers = "python_version < \"3.11\""}
 
 [package.extras]
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-test = ["cython (>=3.0)", "defusedxml (>=0.7.1)", "pytest (>=6.0)", "setuptools (>=67.0)"]
+lint = ["flake8 (>=6.0)", "mypy (==1.11.0)", "pytest (>=6.0)", "ruff (==0.5.5)", "sphinx-lint (>=0.9)", "tomli (>=2)", "types-Pillow (==10.2.0.20240520)", "types-Pygments (==2.18.0.20240506)", "types-colorama (==0.4.15.20240311)", "types-defusedxml (==0.7.0.20240218)", "types-docutils (==0.21.0.20240724)", "types-requests (>=2.30.0)"]
+test = ["cython (>=3.0)", "defusedxml (>=0.7.1)", "pytest (>=8.0)", "setuptools (>=70.0)", "typing_extensions (>=4.9)"]
 
 [[package]]
 name = "sphinx-autodoc-typehints"
-version = "2.1.0"
+version = "2.3.0"
 description = "Type hints (PEP 484) support for the Sphinx autodoc extension"
 optional = false
 python-versions = ">=3.9"
 files = [
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 ]
 
 [package.dependencies]
@@ -3432,84 +3612,84 @@ docs = ["furo", "ipython", "myst-parser", "sphinx-copybutton", "sphinx-inline-ta
 
 [[package]]
 name = "sphinx-click"
-version = "5.1.0"
+version = "6.0.0"
 description = "Sphinx extension that automatically documents click applications"
 optional = false
 python-versions = ">=3.8"
 files = [
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+    {file = "sphinx_click-6.0.0-py3-none-any.whl", hash = "sha256:1e0a3c83bcb7c55497751b19d07ebe56b5d7b85eb76dd399cf9061b497adc317"},
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 ]
 
 [package.dependencies]
-click = ">=7.0"
+click = ">=8.0"
 docutils = "*"
-sphinx = ">=2.0"
+sphinx = ">=4.0"
 
 [[package]]
 name = "sphinx-rtd-theme"
-version = "2.0.0"
+version = "3.0.0rc1"
 description = "Read the Docs theme for Sphinx"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.8"
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-sphinx = ">=5,<8"
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 sphinxcontrib-jquery = ">=4,<5"
 
 [package.extras]
-dev = ["bump2version", "sphinxcontrib-httpdomain", "transifex-client", "wheel"]
+dev = ["bump2version", "transifex-client", "twine", "wheel"]
 
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-lint = ["docutils-stubs", "flake8", "mypy"]
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 standalone = ["Sphinx (>=5)"]
 test = ["pytest"]
 
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 name = "sphinxcontrib-devhelp"
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 standalone = ["Sphinx (>=5)"]
 test = ["pytest"]
 
 [[package]]
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+lint = ["mypy", "ruff (==0.5.5)", "types-docutils"]
 standalone = ["Sphinx (>=5)"]
 test = ["html5lib", "pytest"]
 
@@ -3543,45 +3723,45 @@ test = ["flake8", "mypy", "pytest"]
 
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 standalone = ["Sphinx (>=5)"]
 test = ["pytest"]
 
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 python-versions = ">=3.9"
 files = [
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@@ -3590,70 +3770,70 @@ Sphinx = ">=5"
 sphinxcontrib-serializinghtml = "*"
 
 [package.extras]
-lint = ["docutils-stubs", "flake8", "mypy"]
+lint = ["mypy", "ruff (==0.5.5)", "types-docutils"]
 test = ["pytest"]
 whoosh = ["sqlalchemy", "whoosh"]
 
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 ]
 
 [package.dependencies]
-greenlet = {version = "!=0.4.17", markers = "platform_machine == \"aarch64\" or platform_machine == \"ppc64le\" or platform_machine == \"x86_64\" or platform_machine == \"amd64\" or platform_machine == \"AMD64\" or platform_machine == \"win32\" or platform_machine == \"WIN32\""}
+greenlet = {version = "!=0.4.17", markers = "python_version < \"3.13\" and (platform_machine == \"aarch64\" or platform_machine == \"ppc64le\" or platform_machine == \"x86_64\" or platform_machine == \"amd64\" or platform_machine == \"AMD64\" or platform_machine == \"win32\" or platform_machine == \"WIN32\")"}
 typing-extensions = ">=4.6.0"
 
 [package.extras]
@@ -3742,13 +3922,13 @@ test = ["black", "mypy", "pytest", "ruff"]
 
 [[package]]
 name = "sqlite-utils"
-version = "3.36"
+version = "3.37"
 description = "CLI tool and Python library for manipulating SQLite databases"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
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+    {file = "sqlite_utils-3.37.tar.gz", hash = "sha256:542a71033d4e7936fe909230ac9794d3e200021838ab63dbaf3ce8f5bc2273a4"},
 ]
 
 [package.dependencies]
@@ -3763,18 +3943,18 @@ tabulate = "*"
 docs = ["beanbag-docutils (>=2.0)", "codespell", "furo", "pygments-csv-lexer", "sphinx-autobuild", "sphinx-copybutton"]
 flake8 = ["flake8"]
 mypy = ["data-science-types", "mypy", "types-click", "types-pluggy", "types-python-dateutil", "types-tabulate"]
-test = ["black", "cogapp", "hypothesis", "pytest"]
+test = ["black (>=24.1.1)", "cogapp", "hypothesis", "pytest"]
 tui = ["trogon"]
 
 [[package]]
 name = "sssom"
-version = "0.4.8"
+version = "0.4.11"
 description = "Operations on SSSOM mapping tables"
 optional = false
 python-versions = "<4.0,>=3.8"
 files = [
-    {file = "sssom-0.4.8-py3-none-any.whl", hash = "sha256:1b41f5aedb61e8fc4c4cef581da3fd64a3b8bbfaec46062a00a0105ab253d93b"},
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 ]
 
 [package.dependencies]
@@ -3823,76 +4003,65 @@ widechars = ["wcwidth"]
 
 [[package]]
 name = "tenacity"
-version = "8.2.3"
+version = "9.0.0"
 description = "Retry code until it succeeds"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
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+    {file = "tenacity-9.0.0.tar.gz", hash = "sha256:807f37ca97d62aa361264d497b0e31e92b8027044942bfa756160d908320d73b"},
 ]
 
 [package.extras]
-doc = ["reno", "sphinx", "tornado (>=4.5)"]
-
-[[package]]
-name = "tomli"
-version = "2.0.1"
-description = "A lil' TOML parser"
-optional = false
-python-versions = ">=3.7"
-files = [
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-]
+doc = ["reno", "sphinx"]
+test = ["pytest", "tornado (>=4.5)", "typeguard"]
 
 [[package]]
 name = "tomlkit"
-version = "0.12.4"
+version = "0.13.2"
 description = "Style preserving TOML library"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
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+    {file = "tomlkit-0.13.2-py3-none-any.whl", hash = "sha256:7a974427f6e119197f670fbbbeae7bef749a6c14e793db934baefc1b5f03efde"},
+    {file = "tomlkit-0.13.2.tar.gz", hash = "sha256:fff5fe59a87295b278abd31bec92c15d9bc4a06885ab12bcea52c71119392e79"},
 ]
 
 [[package]]
 name = "tox"
-version = "4.15.0"
+version = "4.18.0"
 description = "tox is a generic virtualenv management and test command line tool"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "tox-4.15.0-py3-none-any.whl", hash = "sha256:300055f335d855b2ab1b12c5802de7f62a36d4fd53f30bd2835f6a201dda46ea"},
-    {file = "tox-4.15.0.tar.gz", hash = "sha256:7a0beeef166fbe566f54f795b4906c31b428eddafc0102ac00d20998dd1933f6"},
+    {file = "tox-4.18.0-py3-none-any.whl", hash = "sha256:0a457400cf70615dc0627eb70d293e80cd95d8ce174bb40ac011011f0c03a249"},
+    {file = "tox-4.18.0.tar.gz", hash = "sha256:5dfa1cab9f146becd6e351333a82f9e0ade374451630ba65ee54584624c27b58"},
 ]
 
 [package.dependencies]
-cachetools = ">=5.3.2"
+cachetools = ">=5.4"
 chardet = ">=5.2"
 colorama = ">=0.4.6"
-filelock = ">=3.13.1"
-packaging = ">=23.2"
-platformdirs = ">=4.1"
-pluggy = ">=1.3"
-pyproject-api = ">=1.6.1"
-tomli = {version = ">=2.0.1", markers = "python_version < \"3.11\""}
-virtualenv = ">=20.25"
+filelock = ">=3.15.4"
+packaging = ">=24.1"
+platformdirs = ">=4.2.2"
+pluggy = ">=1.5"
+pyproject-api = ">=1.7.1"
+virtualenv = ">=20.26.3"
 
 [package.extras]
-docs = ["furo (>=2023.9.10)", "sphinx (>=7.2.6)", "sphinx-argparse-cli (>=1.11.1)", "sphinx-autodoc-typehints (>=1.25.2)", "sphinx-copybutton (>=0.5.2)", "sphinx-inline-tabs (>=2023.4.21)", "sphinxcontrib-towncrier (>=0.2.1a0)", "towncrier (>=23.11)"]
-testing = ["build[virtualenv] (>=1.0.3)", "covdefaults (>=2.3)", "detect-test-pollution (>=1.2)", "devpi-process (>=1)", "diff-cover (>=8.0.2)", "distlib (>=0.3.8)", "flaky (>=3.7)", "hatch-vcs (>=0.4)", "hatchling (>=1.21)", "psutil (>=5.9.7)", "pytest (>=7.4.4)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)", "pytest-xdist (>=3.5)", "re-assert (>=1.1)", "time-machine (>=2.13)", "wheel (>=0.42)"]
+docs = ["furo (>=2024.7.18)", "sphinx (>=7.4.7)", "sphinx-argparse-cli (>=1.16)", "sphinx-autodoc-typehints (>=2.2.3)", "sphinx-copybutton (>=0.5.2)", "sphinx-inline-tabs (>=2023.4.21)", "sphinxcontrib-towncrier (>=0.2.1a0)", "towncrier (>=23.11)"]
+testing = ["build[virtualenv] (>=1.2.1)", "covdefaults (>=2.3)", "detect-test-pollution (>=1.2)", "devpi-process (>=1)", "diff-cover (>=9.1.1)", "distlib (>=0.3.8)", "flaky (>=3.8.1)", "hatch-vcs (>=0.4)", "hatchling (>=1.25)", "psutil (>=6)", "pytest (>=8.3.2)", "pytest-cov (>=5)", "pytest-mock (>=3.14)", "pytest-xdist (>=3.6.1)", "re-assert (>=1.1)", "setuptools (>=70.3)", "time-machine (>=2.14.2)", "wheel (>=0.43)"]
 
 [[package]]
 name = "tqdm"
-version = "4.66.2"
+version = "4.66.5"
 description = "Fast, Extensible Progress Meter"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "tqdm-4.66.2-py3-none-any.whl", hash = "sha256:1ee4f8a893eb9bef51c6e35730cebf234d5d0b6bd112b0271e10ed7c24a02bd9"},
-    {file = "tqdm-4.66.2.tar.gz", hash = "sha256:6cd52cdf0fef0e0f543299cfc96fec90d7b8a7e88745f411ec33eb44d5ed3531"},
+    {file = "tqdm-4.66.5-py3-none-any.whl", hash = "sha256:90279a3770753eafc9194a0364852159802111925aa30eb3f9d85b0e805ac7cd"},
+    {file = "tqdm-4.66.5.tar.gz", hash = "sha256:e1020aef2e5096702d8a025ac7d16b1577279c9d63f8375b63083e9a5f0fcbad"},
 ]
 
 [package.dependencies]
@@ -3906,24 +4075,24 @@ telegram = ["requests"]
 
 [[package]]
 name = "types-python-dateutil"
-version = "2.9.0.20240316"
+version = "2.9.0.20240821"
 description = "Typing stubs for python-dateutil"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "types-python-dateutil-2.9.0.20240316.tar.gz", hash = "sha256:5d2f2e240b86905e40944dd787db6da9263f0deabef1076ddaed797351ec0202"},
-    {file = "types_python_dateutil-2.9.0.20240316-py3-none-any.whl", hash = "sha256:6b8cb66d960771ce5ff974e9dd45e38facb81718cc1e208b10b1baccbfdbee3b"},
+    {file = "types-python-dateutil-2.9.0.20240821.tar.gz", hash = "sha256:9649d1dcb6fef1046fb18bebe9ea2aa0028b160918518c34589a46045f6ebd98"},
+    {file = "types_python_dateutil-2.9.0.20240821-py3-none-any.whl", hash = "sha256:f5889fcb4e63ed4aaa379b44f93c32593d50b9a94c9a60a0c854d8cc3511cd57"},
 ]
 
 [[package]]
 name = "typing-extensions"
-version = "4.11.0"
+version = "4.12.2"
 description = "Backported and Experimental Type Hints for Python 3.8+"
 optional = false
 python-versions = ">=3.8"
 files = [
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-    {file = "typing_extensions-4.11.0.tar.gz", hash = "sha256:83f085bd5ca59c80295fc2a82ab5dac679cbe02b9f33f7d83af68e241bea51b0"},
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+    {file = "typing_extensions-4.12.2.tar.gz", hash = "sha256:1a7ead55c7e559dd4dee8856e3a88b41225abfe1ce8df57b7c13915fe121ffb8"},
 ]
 
 [[package]]
@@ -3967,13 +4136,13 @@ six = "*"
 
 [[package]]
 name = "urllib3"
-version = "2.2.1"
+version = "2.2.2"
 description = "HTTP library with thread-safe connection pooling, file post, and more."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "urllib3-2.2.1-py3-none-any.whl", hash = "sha256:450b20ec296a467077128bff42b73080516e71b56ff59a60a02bef2232c4fa9d"},
-    {file = "urllib3-2.2.1.tar.gz", hash = "sha256:d0570876c61ab9e520d776c38acbbb5b05a776d3f9ff98a5c8fd5162a444cf19"},
+    {file = "urllib3-2.2.2-py3-none-any.whl", hash = "sha256:a448b2f64d686155468037e1ace9f2d2199776e17f0a46610480d311f73e3472"},
+    {file = "urllib3-2.2.2.tar.gz", hash = "sha256:dd505485549a7a552833da5e6063639d0d177c04f23bc3864e41e5dc5f612168"},
 ]
 
 [package.extras]
@@ -3984,24 +4153,27 @@ zstd = ["zstandard (>=0.18.0)"]
 
 [[package]]
 name = "validators"
-version = "0.28.1"
+version = "0.33.0"
 description = "Python Data Validation for Humans™"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "validators-0.28.1-py3-none-any.whl", hash = "sha256:890c98789ad884037f059af6ea915ec2d667129d509180c2c590b8009a4c4219"},
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+    {file = "validators-0.33.0-py3-none-any.whl", hash = "sha256:134b586a98894f8139865953899fc2daeb3d0c35569552c5518f089ae43ed075"},
+    {file = "validators-0.33.0.tar.gz", hash = "sha256:535867e9617f0100e676a1257ba1e206b9bfd847ddc171e4d44811f07ff0bfbf"},
 ]
 
+[package.extras]
+crypto-eth-addresses = ["eth-hash[pycryptodome] (>=0.7.0)"]
+
 [[package]]
 name = "virtualenv"
-version = "20.26.1"
+version = "20.26.3"
 description = "Virtual Python Environment builder"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "virtualenv-20.26.1-py3-none-any.whl", hash = "sha256:7aa9982a728ae5892558bff6a2839c00b9ed145523ece2274fad6f414690ae75"},
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+    {file = "virtualenv-20.26.3-py3-none-any.whl", hash = "sha256:8cc4a31139e796e9a7de2cd5cf2489de1217193116a8fd42328f1bd65f434589"},
+    {file = "virtualenv-20.26.3.tar.gz", hash = "sha256:4c43a2a236279d9ea36a0d76f98d84bd6ca94ac4e0f4a3b9d46d05e10fea542a"},
 ]
 
 [package.dependencies]
@@ -4015,40 +4187,41 @@ test = ["covdefaults (>=2.3)", "coverage (>=7.2.7)", "coverage-enable-subprocess
 
 [[package]]
 name = "watchdog"
-version = "4.0.0"
+version = "5.0.0"
 description = "Filesystem events monitoring"
 optional = false
-python-versions = ">=3.8"
+python-versions = ">=3.9"
 files = [
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+    {file = "watchdog-5.0.0-py3-none-manylinux2014_ppc64le.whl", hash = "sha256:0120b2fa65732797ffa65fa8ee5540c288aa861d91447df298626d6385a24658"},
+    {file = "watchdog-5.0.0-py3-none-manylinux2014_s390x.whl", hash = "sha256:2aa59fab7ff75281778c649557275ca3085eccbdf825a0e2a5ca3810e977afe5"},
+    {file = "watchdog-5.0.0-py3-none-manylinux2014_x86_64.whl", hash = "sha256:78db0fe0336958fc0e1269545c980b6f33d04d184ba191b2800a8b71d3e971a9"},
+    {file = "watchdog-5.0.0-py3-none-win32.whl", hash = "sha256:d1acef802916083f2ad7988efc7decf07e46e266916c0a09d8fb9d387288ea12"},
+    {file = "watchdog-5.0.0-py3-none-win_amd64.whl", hash = "sha256:3c2d50fdb86aa6df3973313272f5a17eb26eab29ff5a0bf54b6d34597b4dc4e4"},
+    {file = "watchdog-5.0.0-py3-none-win_ia64.whl", hash = "sha256:1d17ec7e022c34fa7ddc72aa41bf28c9d1207ffb193df18ba4f6fde453725b3c"},
+    {file = "watchdog-5.0.0.tar.gz", hash = "sha256:990aedb9e2f336b45a70aed9c014450e7c4a70fd99c5f5b1834d57e1453a177e"},
 ]
 
 [package.extras]
@@ -4056,18 +4229,18 @@ watchmedo = ["PyYAML (>=3.10)"]
 
 [[package]]
 name = "webcolors"
-version = "1.13"
+version = "24.8.0"
 description = "A library for working with the color formats defined by HTML and CSS."
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
-    {file = "webcolors-1.13-py3-none-any.whl", hash = "sha256:29bc7e8752c0a1bd4a1f03c14d6e6a72e93d82193738fa860cbff59d0fcc11bf"},
-    {file = "webcolors-1.13.tar.gz", hash = "sha256:c225b674c83fa923be93d235330ce0300373d02885cef23238813b0d5668304a"},
+    {file = "webcolors-24.8.0-py3-none-any.whl", hash = "sha256:fc4c3b59358ada164552084a8ebee637c221e4059267d0f8325b3b560f6c7f0a"},
+    {file = "webcolors-24.8.0.tar.gz", hash = "sha256:08b07af286a01bcd30d583a7acadf629583d1f79bfef27dd2c2c5c263817277d"},
 ]
 
 [package.extras]
 docs = ["furo", "sphinx", "sphinx-copybutton", "sphinx-inline-tabs", "sphinx-notfound-page", "sphinxext-opengraph"]
-tests = ["pytest", "pytest-cov"]
+tests = ["coverage[toml]"]
 
 [[package]]
 name = "wrapt"
@@ -4161,23 +4334,27 @@ files = [
 
 [[package]]
 name = "zipp"
-version = "3.18.1"
+version = "3.20.1"
 description = "Backport of pathlib-compatible object wrapper for zip files"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "zipp-3.18.1-py3-none-any.whl", hash = "sha256:206f5a15f2af3dbaee80769fb7dc6f249695e940acca08dfb2a4769fe61e538b"},
-    {file = "zipp-3.18.1.tar.gz", hash = "sha256:2884ed22e7d8961de1c9a05142eb69a247f120291bc0206a00a7642f09b5b715"},
+    {file = "zipp-3.20.1-py3-none-any.whl", hash = "sha256:9960cd8967c8f85a56f920d5d507274e74f9ff813a0ab8889a5b5be2daf44064"},
+    {file = "zipp-3.20.1.tar.gz", hash = "sha256:c22b14cc4763c5a5b04134207736c107db42e9d3ef2d9779d465f5f1bcba572b"},
 ]
 
 [package.extras]
-docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"]
-testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-ignore-flaky", "pytest-mypy", "pytest-ruff (>=0.2.1)"]
+check = ["pytest-checkdocs (>=2.4)", "pytest-ruff (>=0.2.1)"]
+cover = ["pytest-cov"]
+doc = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"]
+enabler = ["pytest-enabler (>=2.2)"]
+test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools", "jaraco.test", "more-itertools", "pytest (>=6,!=8.1.*)", "pytest-ignore-flaky"]
+type = ["pytest-mypy"]
 
 [extras]
 docs = []
 
 [metadata]
 lock-version = "2.0"
-python-versions = "^3.9"
-content-hash = "38efccc5197f1adf7eefae6256f6299037507a6e2302c9c2095af93e5a48d226"
+python-versions = "^3.11"
+content-hash = "9cb522a65377231b892776ac9a2a0f9c965c6d24ae4679d70f31c86e316efa88"
diff --git a/src/babelon/cli.py b/src/babelon/cli.py
index 97a309c..88c6c75 100644
--- a/src/babelon/cli.py
+++ b/src/babelon/cli.py
@@ -9,11 +9,17 @@
 import click
 import pandas as pd
 from oaklib import get_adapter
+from oaklib.datamodels.vocabulary import IS_A
 
 from babelon.babelon_io import convert_file, parse_file
 from babelon.translate import prepare_translation_for_ontology, translate_profile
 from babelon.translation_profile import statistics_translation_profile
-from babelon.utils import drop_unknown_columns_babelon, sort_babelon
+from babelon.utils import (
+    drop_unknown_columns_babelon,
+    sort_babelon,
+    generate_translation_units,
+    assemble_xliff_file,
+)
 
 info_log = logging.getLogger()
 # Click input options common across commands
@@ -89,7 +95,7 @@ def babelon(verbose=1, quiet=False) -> None:
 # @input_format_option
 @output_option
 def parse(input, output):
-    """Parse a file in one of the supported formats (such as obographs) into an Babelon TSV file."""
+    """Parse a file in one of the supported formats (such as obographs) into a Babelon TSV file."""
     parse_file(input_path=input, output_path=output)
 
 
@@ -302,6 +308,37 @@ def merge(inputs, sort_tables, drop_unknown_columns, output):
         click.echo(df.to_string(index=False))
 
 
+@click.command("prepare-ontology-for-crowdin")
+@click.option("--oak-adapter", type=str, help="Oak handle string.")
+@click.option(
+    "--top-level-term",
+    multiple=True,
+    type=str,
+    help="Top level term in ontology of which to translate all descendants.",
+)
+@output_option
+def prepare_ontology_for_crowdin(oak_adapter, top_level_term, output):
+    """Merge multiple babelon TSV files into one.
+
+    Example:
+        babelon prepare-ontology-for-crowdin --oak-adapter simpleobo:hp-base.obo --top-level-term HP:0000001 -o hp-translation.xliff
+    """  # noqa: DAR101
+    adapter = get_adapter(oak_adapter)
+    translation_units = list()
+
+    for top_level_term in top_level_term:
+        for term in adapter.descendants(top_level_term, predicates=[IS_A]):
+            label = adapter.label(term)
+            definition = adapter.definition(term)
+            alias_map = adapter.entity_alias_map(term)
+            synonyms = [v for p, vl in alias_map.items() if "oio:hasExactSynonym" == p for v in vl]
+            xml = generate_translation_units(term, label, definition, synonyms)
+            translation_units.extend(xml)
+
+    xliff = assemble_xliff_file(translation_units)
+    output.write(xliff)
+
+
 @click.command("example")
 @input_argument
 def example(input):
@@ -341,6 +378,7 @@ def example(input):
 babelon.add_command(example)
 babelon.add_command(merge)
 babelon.add_command(parse)
+babelon.add_command(prepare_ontology_for_crowdin)
 babelon.add_command(prepare_translation)
 babelon.add_command(translate)
 babelon.add_command(convert)
diff --git a/src/babelon/utils.py b/src/babelon/utils.py
index 4e755a0..c1a2ca0 100644
--- a/src/babelon/utils.py
+++ b/src/babelon/utils.py
@@ -7,6 +7,8 @@
 from pathlib import Path
 from string import punctuation
 from typing import TextIO, Union
+from xml.etree.ElementTree import Element, SubElement, tostring, fromstring
+from xml.dom import minidom
 
 import pandas as pd
 import validators
@@ -112,3 +114,58 @@ def drop_unknown_columns_babelon(df: pd.DataFrame):
 
     profile_fields = [f.name for f in fields(Translation)]
     return df[df.columns.intersection(profile_fields)]
+
+
+def assemble_xliff_file(translation_units):
+    xliff = Element("xliff", version="1.2")
+    file = SubElement(xliff, "file", {"original": "HPO_classes", "source-language": "en-US"})
+    body = SubElement(file, "body")
+
+    for unit in translation_units:
+        unit_xml = unit.toxml()
+        unit_element = fromstring(unit_xml)
+        body.append(unit_element)
+
+    raw_string = tostring(xliff, "utf-8")
+    reparsed = minidom.parseString(raw_string)
+
+    return reparsed.toprettyxml(indent="  ")
+
+
+def assemble_xliff_translation_unit(identifier, id_normalised, label, element, value):
+    if not label:
+        label = "no label"
+    trans_unit = Element("trans-unit", id=f"{id_normalised}_{element}")
+    source = SubElement(trans_unit, "source", {"xml:lang": "en"})
+    source.text = value.strip().rstrip(".")
+    note = SubElement(trans_unit, "note")
+    note.text = f"{element} of {identifier} ({label})"
+    raw = tostring(trans_unit, "utf-8")
+    reparsed = minidom.parseString(raw)
+    return reparsed
+
+
+def generate_translation_units(identifier, label, definition, synonyms):
+    elements = list()
+
+    id_normalised = identifier.replace(":", "_")
+
+    if label:
+        reparsed_label = assemble_xliff_translation_unit(
+            identifier, id_normalised, label, "label", label
+        )
+        elements.append(reparsed_label)
+
+    if definition:
+        reparsed_def = assemble_xliff_translation_unit(
+            identifier, id_normalised, label, "definition", definition
+        )
+        elements.append(reparsed_def)
+
+    if synonyms:
+        synonyms_normalised = " ".join([f"#{synonym}" for synonym in synonyms])
+        reparsed_synonyms = assemble_xliff_translation_unit(
+            identifier, id_normalised, label, "synonyms", synonyms_normalised
+        )
+        elements.append(reparsed_synonyms)
+    return elements

From 079000fef0423e0141563003270cf9ecc3459cfb Mon Sep 17 00:00:00 2001
From: souzadevinicius <souzadevinicius@gmail.com>
Date: Fri, 30 Aug 2024 14:51:26 +0100
Subject: [PATCH 2/2] Harmonising the Python version in QC workflow to be
 compatible with TOML file

---
 .github/workflows/qc.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/qc.yml b/.github/workflows/qc.yml
index 6eaad53..b7e377a 100644
--- a/.github/workflows/qc.yml
+++ b/.github/workflows/qc.yml
@@ -11,7 +11,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: [ "3.8", "3.11" ]
+        python-version: [ "3.11" ]
 
     steps:
       - uses: actions/checkout@v3.0.2